Single cell type - NEBL - The Human Protein Atlas

NEBL

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GENERAL INFORMATIONⁱ General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.
Gene nameⁱ Official gene symbol, which is typically a short form of the gene name, according to HGNC.	NEBL
Gene descriptionⁱ Full gene name according to HGNC.	Nebulette
Predicted locationⁱ All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions. Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached. Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s). The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location.	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	4

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Single cell type expression clusterⁱ The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.	Cardiomyocytes - Muscle contraction (mainly)
Single cell type specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected.	Group enriched (Cardiomyocytes, Astrocytes)
Tau specificity scoreⁱ Tau specificity score is a numerical indicator of the specificity of the gene expression across cells or tissues. The value ranges from 0 and 1, where 0 indicates identical expression across all cells/tissue types, while 1 indicates expression in a single cell/tissue type.	0.69
Brain cluster specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell cluster types based on snRNA-seq data from brain samples. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. "cell type" refer to one of the 34 cluster names used to summarize the 2.5 million cells included in the brain cell representation.	Low cell type specificity
Immune cell specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected.	Not detected in immune cells
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); neXtProt protein existence (neXtProt evidence);and a Human Protein Atlas antibody- or RNA based score (HPA evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable.	Evidence at protein level

ASSAYSⁱ

SINGLE CELL TYPESⁱ A summary of normalized single cell RNA (nTPM) from all single cell types. Color-coding is based on cell type groups, each consisting of cell types with functional features in common.
Single cell types RNA single cell type specificity: Group enriched (Cardiomyocytes, Astrocytes)

TISSUE CELL TYPEⁱ The tissue cell type section provides a cell type specificity prediction for all protein coding genes. More information on the data available can be found here and a description of the analysis here.
	Core cell typesⁱ The core cell type table displays data for a panel of eight cell types that are found in many tissues. Colored dots indicate that the selected gene has core cell type specificity in the indicated tissue. Grey dots indicate that cell type is present within that tissue, but the selected gene is not predicted to be enriched there. Category Alphabetical Enrichment Tissue specific cell typesⁱ This plot shows the enrichment score of the selected gene in all non-core cell types found within the profiled tissues, allowing comparisons between different cell types within different tissues. An enlarged symbol indicates classification of the gene as cell type enriched in the corresponding cell type.

SINGLE NUCLEI BRAINⁱ

Single nuclei cluster types

RNA brain cluster specificity: Low cell type specificity

IMMUNE CELL TYPE EXPRESSION (RNA)ⁱ Blood cell type expression overview shows RNA-seq data from three different sources: Internally generated Human Protein Atlas (HPA) data, as well as data generated by (Monaco et al) and (Schmiedel et al). Color-coding is based on blood cell type lineages, including B-cells, T-cells, NK-cells, monocytes, granulocytes and dendritic cells as well as total PBMC. To access sample data, click on tissue name or bar.
HPA datasetⁱ The resulting transcript expression values calculated as nTPM, resulting from the internal normalization pipeline for 18 immune cell types and total peripheral blood mononuclear cells (PBMC). Lineage Expression Alphabetical Immune cell type specificity: Not detected in immune cells
Monaco datasetⁱ The transcript expression values (nTPM) resulting from the internal normalization pipeline are visualized for 29 blood cell types and total peripheral blood mononuclear cells (PBMC) from Monaco et al. Lineage Expression Alphabetical
Schmiedel datasetⁱ Transcript Per Million (TPM) values are visualized for 15 blood cell types from the Schmiedel et al. dataset. Lineage Expression Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SINGLE CELL TYPE

NEBL is part of cluster 68 Cardiomyocytes - Muscle contraction with confidenceⁱ 1
262 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
MYOZ2	Myozenin 2	0.8643	68
FBXO40	F-box protein 40	0.8641	68
CKMT2	Creatine kinase, mitochondrial 2	0.8629	68
TECRL	Trans-2,3-enoyl-CoA reductase like	0.8526	68
MYBPC3	Myosin binding protein C3	0.8522	68
LRRC10	Leucine rich repeat containing 10	0.8512	68
TNNT2	Troponin T2, cardiac type	0.8496	68
ANKRD1	Ankyrin repeat domain 1	0.8481	68
ZNF106	Zinc finger protein 106	0.8438	68
TNNI3	Troponin I3, cardiac type	0.8380	68
ITGB1BP2	Integrin subunit beta 1 binding protein 2	0.8351	68
FSD2	Fibronectin type III and SPRY domain containing 2	0.8330	68
SYNPO2L	Synaptopodin 2 like	0.8329	68
FITM2	Fat storage inducing transmembrane protein 2	0.8276	68
HRC	Histidine rich calcium binding protein	0.8275	68

Adipocytes	19.3 nTPM
Adipose tissue	27.5 nTPM
Breast	11.2 nTPM

Alveolar cells type 1	93.7 nTPM
Lung	93.7 nTPM

Alveolar cells type 2	57.9 nTPM
Lung	57.9 nTPM

B-cells	0.7 nTPM
Salivary gland	5.4 nTPM
Skin	1.7 nTPM
Lung	1.3 nTPM
Bone marrow	0.7 nTPM
Lymph node	0.2 nTPM
Thymus	0.1 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Basal keratinocytes	23.5 nTPM
Tongue	30.9 nTPM
Skin	16.1 nTPM

Ciliated cells	27.4 nTPM
Bronchus	51.2 nTPM
Lung	39.9 nTPM
Endometrium	16.6 nTPM
Fallopian tube	1.6 nTPM

Club cells	32.1 nTPM
Prostate	36.1 nTPM
Lung	35.4 nTPM
Bronchus	24.8 nTPM

Endothelial cells	15.0 nTPM
Heart muscle	89.9 nTPM
Skin	33.6 nTPM
Skeletal muscle	32.8 nTPM
Tongue	25.1 nTPM
Salivary gland	18.4 nTPM
Thymus	12.6 nTPM
Vascular	10.2 nTPM
Esophagus	9.0 nTPM
Endometrium	7.2 nTPM
Prostate	5.8 nTPM
Fallopian tube	5.3 nTPM
Pancreas	5.2 nTPM
Ovary	4.8 nTPM
Lung	4.0 nTPM
Testis	3.7 nTPM
Placenta	1.1 nTPM
Breast	0.9 nTPM
Liver	0.0 nTPM

Enteroendocrine cells	8.4 nTPM
Rectum	18.4 nTPM
Colon	6.8 nTPM
Small intestine	0.0 nTPM

Fibroblasts	41.4 nTPM
Heart muscle	563.7 nTPM
Lung	37.7 nTPM
Prostate	17.8 nTPM
Placenta	12.9 nTPM
Salivary gland	9.3 nTPM
Vascular	6.9 nTPM
Breast	5.4 nTPM
Thymus	3.1 nTPM
Pancreas	1.7 nTPM
Skin	1.5 nTPM
Skeletal muscle	1.0 nTPM
Fallopian tube	0.4 nTPM
Adipose tissue	0.2 nTPM
Esophagus	0.2 nTPM
Liver	0.0 nTPM
Stomach	0.0 nTPM

Granulocytes	7.3 nTPM
Tongue	19.4 nTPM
Lung	2.5 nTPM
Fallopian tube	0.0 nTPM

Intestinal goblet cells	15.7 nTPM
Rectum	29.3 nTPM
Small intestine	11.5 nTPM
Colon	6.2 nTPM

Lymphatic endothelial cells	0.0 nTPM
Fallopian tube	0.0 nTPM
Ovary	0.0 nTPM

Macrophages	2.3 nTPM
Salivary gland	15.9 nTPM
Tongue	9.6 nTPM
Fallopian tube	4.9 nTPM
Endometrium	4.3 nTPM
Skeletal muscle	3.8 nTPM
Prostate	1.9 nTPM
Skin	1.1 nTPM
Breast	0.9 nTPM
Testis	0.6 nTPM
Lung	0.6 nTPM
Thymus	0.6 nTPM
Vascular	0.2 nTPM
Adipose tissue	0.1 nTPM
Kidney	0.0 nTPM
Pancreas	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	26.1 nTPM
Rectum	28.9 nTPM
Colon	25.3 nTPM
Small intestine	24.2 nTPM

Astrocytes	902.0 nTPM
Brain	902.0 nTPM

Bipolar cells	82.4 nTPM
Eye	82.4 nTPM

Cholangiocytes	11.4 nTPM
Liver	11.4 nTPM

Collecting duct cells	33.1 nTPM
Kidney	33.1 nTPM

Plasma cells	2.1 nTPM
Salivary gland	16.6 nTPM
Thymus	0.1 nTPM
Liver	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Fallopian tube	0.0 nTPM

Schwann cells	1.0 nTPM
Vascular	3.1 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	91.9 nTPM
Salivary gland	130.8 nTPM
Tongue	53.0 nTPM

Smooth muscle cells	6.7 nTPM
Salivary gland	50.2 nTPM
Placenta	20.1 nTPM
Skeletal muscle	11.7 nTPM
Tongue	6.9 nTPM
Prostate	4.9 nTPM
Skin	2.9 nTPM
Breast	2.9 nTPM
Endometrium	2.3 nTPM
Liver	2.1 nTPM
Lung	1.2 nTPM
Vascular	0.6 nTPM
Thymus	0.3 nTPM
Ovary	0.2 nTPM
Fallopian tube	0.1 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM

Suprabasal keratinocytes	64.6 nTPM
Tongue	81.6 nTPM
Skin	47.6 nTPM

T-cells	1.6 nTPM
Tongue	7.4 nTPM
Salivary gland	5.5 nTPM
Endometrium	4.1 nTPM
Prostate	3.1 nTPM
Esophagus	2.4 nTPM
Skin	2.1 nTPM
Colon	1.9 nTPM
Kidney	1.8 nTPM
Breast	1.7 nTPM
Lung	1.1 nTPM
Vascular	0.8 nTPM
Lymph node	0.5 nTPM
Adipose tissue	0.4 nTPM
PBMC	0.3 nTPM
Thymus	0.3 nTPM
Fallopian tube	0.3 nTPM
Liver	0.0 nTPM
Skeletal muscle	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Undifferentiated cells	14.0 nTPM
Rectum	25.4 nTPM
Colon	9.0 nTPM
Small intestine	7.6 nTPM

Amygdala excitatory	707.9 nTPM
Thalamus	956.0 nTPM
Amygdala	706.7 nTPM
Cerebral cortex	705.3 nTPM
Hippocampus	698.2 nTPM
Basal ganglia	680.2 nTPM
Hypothalamus	501.1 nTPM

Astrocyte	2120.3 nTPM
Amygdala	2968.3 nTPM
Hypothalamus	2502.1 nTPM
Hippocampus	2392.2 nTPM
Spinal cord	2152.0 nTPM
Basal ganglia	2087.9 nTPM
Cerebral cortex	2050.1 nTPM
Cerebellum	2010.8 nTPM
Medulla oblongata	1871.9 nTPM
Thalamus	1789.5 nTPM
Midbrain	1766.3 nTPM
Pons	1732.4 nTPM

Bergmann glia	1090.6 nTPM
Cerebellum	1147.9 nTPM
Medulla oblongata	1108.2 nTPM
Pons	1015.6 nTPM

Central nervous system macrophage	15.6 nTPM
Hypothalamus	23.6 nTPM
Spinal cord	22.7 nTPM
Hippocampus	19.7 nTPM
Cerebral cortex	18.7 nTPM
Amygdala	18.6 nTPM
Cerebellum	16.7 nTPM
Medulla oblongata	12.9 nTPM
Basal ganglia	11.5 nTPM
Thalamus	9.7 nTPM
Midbrain	8.7 nTPM
Pons	8.3 nTPM

Cerebellar inhibitory	462.4 nTPM
Pons	654.5 nTPM
Cerebellum	432.8 nTPM
Medulla oblongata	418.5 nTPM
Spinal cord	409.7 nTPM
Midbrain	396.3 nTPM

Cge interneuron	782.8 nTPM
Hypothalamus	858.3 nTPM
Amygdala	857.9 nTPM
Thalamus	834.7 nTPM
Midbrain	824.1 nTPM
Basal ganglia	717.2 nTPM
Hippocampus	714.0 nTPM
Cerebral cortex	673.6 nTPM

Choroid plexus epithelial cell	125.5 nTPM
Basal ganglia	189.4 nTPM
Thalamus	120.6 nTPM
Medulla oblongata	108.8 nTPM
Hippocampus	83.2 nTPM

Committed oligodendrocyte precursor	170.3 nTPM
Medulla oblongata	262.1 nTPM
Basal ganglia	220.1 nTPM
Cerebellum	207.7 nTPM
Pons	190.3 nTPM
Cerebral cortex	186.8 nTPM
Hippocampus	179.8 nTPM
Amygdala	169.2 nTPM
Midbrain	168.0 nTPM
Hypothalamus	133.8 nTPM
Spinal cord	95.7 nTPM
Thalamus	59.9 nTPM

Deep-layer corticothalamic and 6b	362.3 nTPM
Hippocampus	408.6 nTPM
Hypothalamus	393.4 nTPM
Midbrain	363.9 nTPM
Cerebral cortex	348.0 nTPM
Basal ganglia	335.9 nTPM
Amygdala	324.1 nTPM

Deep-layer intratelencephalic	491.9 nTPM
Hypothalamus	561.3 nTPM
Amygdala	529.3 nTPM
Hippocampus	506.0 nTPM
Basal ganglia	432.3 nTPM
Cerebral cortex	430.6 nTPM

Deep-layer near-projecting	375.6 nTPM
Hypothalamus	444.1 nTPM
Amygdala	410.2 nTPM
Cerebral cortex	356.4 nTPM
Hippocampus	343.8 nTPM
Basal ganglia	323.2 nTPM

Eccentric medium spiny neuron	856.1 nTPM
Amygdala	969.4 nTPM
Hypothalamus	867.0 nTPM
Cerebral cortex	855.6 nTPM
Thalamus	843.7 nTPM
Hippocampus	829.9 nTPM
Basal ganglia	771.0 nTPM

Endothelial cell	1363.0 nTPM
Pons	1573.5 nTPM
Hippocampus	1474.6 nTPM
Amygdala	1449.7 nTPM
Cerebellum	1443.4 nTPM
Hypothalamus	1428.0 nTPM
Spinal cord	1368.7 nTPM
Cerebral cortex	1348.9 nTPM
Thalamus	1323.3 nTPM
Midbrain	1288.1 nTPM
Basal ganglia	1265.8 nTPM
Medulla oblongata	1028.6 nTPM